marvinquiet
Postdoc advised by Dr. Xiang Zhou at Umich Biostatistics || spatial genomics
@xzhoulabUniversity of Michigan
Pinned Repositories
android-common
Android common lib, include ImageCache, HttpCache, DropDownListView, DownloadManager, Utils and so on
android_family_link
Google Girl's Hackathon - mesa group share
AndroidSubscribe_import
Use to get notification by LeanCloud.
BART-WEB
Predict functional transcription factors leveraging H3K27ac profiles and ChIP-seq TF binding datasets.
bart2
Revised version using adaptive lasso model to predict functional transcription factors from a gene list or a ChIP-seq binding profile.
Cellcano
Supervised cell type identification for scATAC-seq data
LRcell
The goal of LRcell is to identify specific sub-cell types that drives the changes observed in a bulk RNA-seq differential gene expression experiment. To achieve this, LRcell utilizes sets of cell marker genes acquired from single-cell RNA-sequencing (scRNA-seq) as indicators for various cell types in the tissue of interest. Next, for each cell type, using its marker genes as indicators, we apply Logistic Regression on the complete set of genes with differential expression p-values to calculate a cell-type significance p-value. Finally, these p-values are compared to predict which one(s) are likely to be responsible for the differential gene expression pattern observed in the bulk RNA-seq experiments.
marvinquiet
Show my work
RefConstruction_supervisedCelltyping
Source code for "Evaluation of some aspects in supervised cell type identification for single-cell RNA-seq: classifier, feature selection, and reference construction".
scRNA-seq_celltyping_reference
Exploration on using scRNA-seq datasets as reference, such as what factors might affect reference quality.
marvinquiet's Repositories
marvinquiet/Cellcano
Supervised cell type identification for scATAC-seq data
marvinquiet/RefConstruction_supervisedCelltyping
Source code for "Evaluation of some aspects in supervised cell type identification for single-cell RNA-seq: classifier, feature selection, and reference construction".
marvinquiet/LRcell
The goal of LRcell is to identify specific sub-cell types that drives the changes observed in a bulk RNA-seq differential gene expression experiment. To achieve this, LRcell utilizes sets of cell marker genes acquired from single-cell RNA-sequencing (scRNA-seq) as indicators for various cell types in the tissue of interest. Next, for each cell type, using its marker genes as indicators, we apply Logistic Regression on the complete set of genes with differential expression p-values to calculate a cell-type significance p-value. Finally, these p-values are compared to predict which one(s) are likely to be responsible for the differential gene expression pattern observed in the bulk RNA-seq experiments.
marvinquiet/BART-WEB
Predict functional transcription factors leveraging H3K27ac profiles and ChIP-seq TF binding datasets.
marvinquiet/scRNA-seq_celltyping_reference
Exploration on using scRNA-seq datasets as reference, such as what factors might affect reference quality.
marvinquiet/marvinquiet
Show my work
marvinquiet/bart2
Revised version using adaptive lasso model to predict functional transcription factors from a gene list or a ChIP-seq binding profile.
marvinquiet/BART_chipatlas_analysis
Batch generation on ChIP-Atlas result
marvinquiet/BARTweb_docker
Docker based, new version of BARTweb
marvinquiet/BARTweb_jump
Receive the Amazon SQS Service and trigger the shell script.
marvinquiet/BioSPPy
Biosignal Processing in Python
marvinquiet/BMI500_hw2
Homework repos for BMI500
marvinquiet/BMI500_hw3
HW3-clustering algorithm implement for course BMI500
marvinquiet/BSSLecture
Simplified illustration of blind-source separation algorithms
marvinquiet/BSSLectureExamplesForStudents
marvinquiet/CS584_Final_Project
Class project: from phenotype to genotype.
marvinquiet/DEC-keras
Keras implementation for Deep Embedding Clustering (DEC)
marvinquiet/deid2020
Class project for de-identification BMI 500 all 2020
marvinquiet/HippoOrganoid_analysis_pipeline
The analysis code for analyzing Hippocampus Organoid
marvinquiet/IBS574
For IBS574 HW
marvinquiet/LRcellTypeMarkers
This is an external data storage package for LRcell R package using AnnotationHub.
marvinquiet/marvinquiet.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
marvinquiet/maupassant-hexo
A simple Hexo theme forked from icylogic.
marvinquiet/monocle3
marvinquiet/PhysioNet-Cardiovascular-Signal-Toolbox
PhysioNet Cardiovascular Signal Toolbox
marvinquiet/pytorch-adda
A PyTorch implementation for Adversarial Discriminative Domain Adaptation
marvinquiet/scATAC-adda
Fork from https://github.com/erictzeng/adda
marvinquiet/sci-CAR_analysis
Scripts for processing sci-RNA-seq/sci-ATAC-seq/sci-CAR reads processing
marvinquiet/SnapATAC
Analysis Pipeline for Single Cell ATAC-seq
marvinquiet/Zhaohui-Steve-Qin-lab-page
This is a simple static research lab website template which can be used by college students / professors.